+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-34637 | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | cocktail of FMDV (A/TUR/14/98) in complex with M678F and M688F | |||||||||
Map data | ||||||||||
Sample |
| |||||||||
Keywords | FMDV / antibody / VIRUS | |||||||||
Function / homology | Function and homology information icosahedral viral capsid / host cell cytoplasm / symbiont entry into host cell / virion attachment to host cell / structural molecule activity / cytoplasm Similarity search - Function | |||||||||
Biological species | Foot-and-mouth disease virus A / Lama glama (llama) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.9 Å | |||||||||
Authors | Li HZ / Dong H / Liu P | |||||||||
Funding support | 1 items
| |||||||||
Citation | Journal: To Be Published Title: Structural and in vivo studies of neutralizing antibody topographical classifications reveal mechanisms underlying differences in immunogenicity and antigenicity between 146S and 12S of foot- ...Title: Structural and in vivo studies of neutralizing antibody topographical classifications reveal mechanisms underlying differences in immunogenicity and antigenicity between 146S and 12S of foot-and-mouth disease virus Authors: Li HZ / Dong H / Liu P | |||||||||
History |
|
-Structure visualization
Supplemental images |
---|
-Downloads & links
-EMDB archive
Map data | emd_34637.map.gz | 49.8 MB | EMDB map data format | |
---|---|---|---|---|
Header (meta data) | emd-34637-v30.xml emd-34637.xml | 17.3 KB 17.3 KB | Display Display | EMDB header |
Images | emd_34637.png | 70.2 KB | ||
Filedesc metadata | emd-34637.cif.gz | 5.7 KB | ||
Others | emd_34637_half_map_1.map.gz emd_34637_half_map_2.map.gz | 75.6 MB 75.6 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-34637 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-34637 | HTTPS FTP |
-Related structure data
Related structure data | 8hbjMC 8hbgC 8hbiC 8heeC 8hegC M: atomic model generated by this map C: citing same article (ref.) |
---|---|
Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
---|---|
Related items in Molecule of the Month |
-Map
File | Download / File: emd_34637.map.gz / Format: CCP4 / Size: 178 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Voxel size | X=Y=Z: 1.36 Å | ||||||||||||||||||||
Density |
| ||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
|
-Supplemental data
-Half map: #1
File | emd_34637_half_map_1.map | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Projections & Slices |
| ||||||||||||
Density Histograms |
-Half map: #2
File | emd_34637_half_map_2.map | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Projections & Slices |
| ||||||||||||
Density Histograms |
-Sample components
-Entire : FMDV capsid protein in complex with M678F nab and M688F nab
Entire | Name: FMDV capsid protein in complex with M678F nab and M688F nab |
---|---|
Components |
|
-Supramolecule #1: FMDV capsid protein in complex with M678F nab and M688F nab
Supramolecule | Name: FMDV capsid protein in complex with M678F nab and M688F nab type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
---|---|
Source (natural) | Organism: Foot-and-mouth disease virus A |
-Macromolecule #1: M678F nab
Macromolecule | Name: M678F nab / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: Lama glama (llama) |
Molecular weight | Theoretical: 12.753181 KDa |
Recombinant expression | Organism: Yeast centromeric expression vector p416GPD (others) |
Sequence | String: QVQLQESGGG LVQAGGSLRL SCVYSGGAYS MGWYRQAPGK QRELVAAITD DGITNYRDTV KGRFTISRDN AKKAVYLQMN SLKPEDTAV YHCNTVRRVA TLSGSSSGSW GQGTQVTVSS |
-Macromolecule #2: M688F nab
Macromolecule | Name: M688F nab / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: Lama glama (llama) |
Molecular weight | Theoretical: 13.861437 KDa |
Recombinant expression | Organism: Yeast centromeric expression vector p416GPD (others) |
Sequence | String: QVQLQESGGG LVQAGDSLRL SCVPSVRTSD NYIMGWFRQP PGKEREFVAA IRRSDGTTKY AASVKGRFAI SRDVAKNAAY LQMNSLKAE DTAVYYCAAK YQSTFYSTMD VQYDYWGQGT QVTVSS |
-Macromolecule #3: VP1 of capsid protein
Macromolecule | Name: VP1 of capsid protein / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: Foot-and-mouth disease virus A |
Molecular weight | Theoretical: 23.111094 KDa |
Sequence | String: TTSAGESADP VTTTVENYGG ETQVQRRHHT DVGFIMDRFV KINNTNPTHV IDLMQTHQHG LVGALLRAAT YYFSDLEIVV RHEGNLTWV PNGAPEAALS NAGNPTAYNK APFTRLALPY TAPHRVLATV YNGTSKYSTT GERTRGDLGA LAARVATQLP A SFNFGAIR ...String: TTSAGESADP VTTTVENYGG ETQVQRRHHT DVGFIMDRFV KINNTNPTHV IDLMQTHQHG LVGALLRAAT YYFSDLEIVV RHEGNLTWV PNGAPEAALS NAGNPTAYNK APFTRLALPY TAPHRVLATV YNGTSKYSTT GERTRGDLGA LAARVATQLP A SFNFGAIR ATDISELLVR MKRAELYCPR PLLAVEVTAQ DRHKQKIIAP AKQ UniProtKB: Genome polyprotein |
-Macromolecule #4: VP2 of capsid protein
Macromolecule | Name: VP2 of capsid protein / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: Foot-and-mouth disease virus A |
Molecular weight | Theoretical: 24.575779 KDa |
Sequence | String: DKKTEETTLL EDRTLTTRNG HTTSTTQSSV GVTYGYSTGE DHVSGPNTSG LETRVTQAER FFKKHLFNWT TDKPFGHLEK LKLPTDHKG VYGHLVDSFA YMRNGWDVEV SAVGNQFNGG CLLVAMVPEW KKFTPREKYQ LTLFPHQFIS PRTNMTAHIT V PYLGVNRY ...String: DKKTEETTLL EDRTLTTRNG HTTSTTQSSV GVTYGYSTGE DHVSGPNTSG LETRVTQAER FFKKHLFNWT TDKPFGHLEK LKLPTDHKG VYGHLVDSFA YMRNGWDVEV SAVGNQFNGG CLLVAMVPEW KKFTPREKYQ LTLFPHQFIS PRTNMTAHIT V PYLGVNRY DQYKKHKPWT LVVMVVSPLT TSSIGATEIK VYANIAPTHV HVAGELPSKE UniProtKB: Genome polyprotein |
-Macromolecule #5: VP3 of capsid protein
Macromolecule | Name: VP3 of capsid protein / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: Foot-and-mouth disease virus A |
Molecular weight | Theoretical: 24.284121 KDa |
Sequence | String: GIVPVACSDG YGGLVTTDPK TADPVYGKVY NPPRTNYPGR FTNLLDVAEA CPTFLCFDDG KPYVVTREDE QRLLAKFDVS LAAKHMSNT YLSGIAQYYA QYSGTINLHF MFTGSTDSKA RYMVAYVPPG VETPPDTPER AAHCIHAEWD TGLNSKFTFS I PYVSAADY ...String: GIVPVACSDG YGGLVTTDPK TADPVYGKVY NPPRTNYPGR FTNLLDVAEA CPTFLCFDDG KPYVVTREDE QRLLAKFDVS LAAKHMSNT YLSGIAQYYA QYSGTINLHF MFTGSTDSKA RYMVAYVPPG VETPPDTPER AAHCIHAEWD TGLNSKFTFS I PYVSAADY AYTASDVAET TNVQGWVCIY QITHGKAQND TLVVSVSAGK DFELRLPIDP RTQ UniProtKB: Genome polyprotein |
-Macromolecule #6: VP4 of capsid protein
Macromolecule | Name: VP4 of capsid protein / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: Foot-and-mouth disease virus A |
Molecular weight | Theoretical: 8.778129 KDa |
Sequence | String: GAGQSSPATG SQNQSGNTGS IINNYYMQQY QNSMDTQLGD NAISGGSNEG STDTTSTHTT NTQNNDWFSK LASSAFSGLF GALLA UniProtKB: Genome polyprotein |
-Experimental details
-Structure determination
Method | cryo EM |
---|---|
Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7 |
---|---|
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TALOS ARCTICA |
---|---|
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 30.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: DIFFRACTION / Nominal defocus max: 2.8000000000000003 µm / Nominal defocus min: 1.2 µm |
Experimental equipment | Model: Talos Arctica / Image courtesy: FEI Company |
-Image processing
Startup model | Type of model: INSILICO MODEL |
---|---|
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 2.9 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 34373 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |